Incidental Mutation 'IGL02203:Ybx3'
ID 284401
Institutional Source Australian Phenomics Network (link to record)
Gene Symbol Ybx3
Ensembl Gene ENSMUSG00000030189
Gene Name Y box protein 3
Synonyms dbpA, MSY4, MSY3, Dpba, Yb2, oxyR, Csda
Accession Numbers
Essential gene? Non essential (E-score: 0.000) question?
Stock # IGL02203
Quality Score
Status
Chromosome 6
Chromosomal Location 131341821-131365413 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 131345371 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Valine to Alanine at position 265 (V265A)
Ref Sequence ENSEMBL: ENSMUSP00000085172 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000032309] [ENSMUST00000087865]
AlphaFold Q9JKB3
Predicted Effect probably benign
Transcript: ENSMUST00000032309
AA Change: V334A

PolyPhen 2 Score 0.003 (Sensitivity: 0.98; Specificity: 0.44)
SMART Domains Protein: ENSMUSP00000032309
Gene: ENSMUSG00000030189
AA Change: V334A

DomainStartEndE-ValueType
low complexity region 3 13 N/A INTRINSIC
low complexity region 14 71 N/A INTRINSIC
CSP 84 152 8.65e-24 SMART
low complexity region 166 182 N/A INTRINSIC
low complexity region 186 198 N/A INTRINSIC
low complexity region 212 232 N/A INTRINSIC
low complexity region 278 293 N/A INTRINSIC
low complexity region 315 329 N/A INTRINSIC
Predicted Effect probably benign
Transcript: ENSMUST00000087865
AA Change: V265A

PolyPhen 2 Score 0.007 (Sensitivity: 0.96; Specificity: 0.75)
SMART Domains Protein: ENSMUSP00000085172
Gene: ENSMUSG00000030189
AA Change: V265A

DomainStartEndE-ValueType
low complexity region 3 13 N/A INTRINSIC
low complexity region 14 71 N/A INTRINSIC
CSP 84 152 8.65e-24 SMART
low complexity region 166 182 N/A INTRINSIC
low complexity region 209 224 N/A INTRINSIC
low complexity region 246 260 N/A INTRINSIC
Predicted Effect noncoding transcript
Transcript: ENSMUST00000203157
Predicted Effect noncoding transcript
Transcript: ENSMUST00000205035
Coding Region Coverage
Validation Efficiency
MGI Phenotype PHENOTYPE: Half of mice homozygous for a knock-out allele exhibit male infertility associated with smaller testes and reduced sperm production, partly due to increased spermatocyte apoptosis during mid to late spermatogenesis and progressive seminiferous tubule degeneration. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 39 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Abca4 A C 3: 121,973,457 (GRCm39) D1095A probably benign Het
Acmsd T C 1: 127,666,342 (GRCm39) probably benign Het
Ap5m1 G A 14: 49,317,715 (GRCm39) G324D probably damaging Het
Api5 T G 2: 94,255,419 (GRCm39) N252T probably benign Het
Arhgap45 T A 10: 79,863,387 (GRCm39) C743* probably null Het
Clpb A G 7: 101,428,544 (GRCm39) T435A probably damaging Het
Csmd3 C T 15: 47,713,073 (GRCm39) probably null Het
Cyp3a11 T G 5: 145,805,976 (GRCm39) R130S probably damaging Het
Dennd4c A G 4: 86,721,173 (GRCm39) T612A probably benign Het
Dipk1a A G 5: 108,059,647 (GRCm39) L57S probably benign Het
Eng A G 2: 32,561,498 (GRCm39) I170V probably benign Het
Gfra2 T A 14: 71,204,524 (GRCm39) M74K possibly damaging Het
Gpr137c A G 14: 45,514,944 (GRCm39) T268A possibly damaging Het
Gramd2b T C 18: 56,612,026 (GRCm39) probably null Het
Il13ra2 A G X: 146,166,669 (GRCm39) L367P possibly damaging Het
Insr T C 8: 3,205,817 (GRCm39) H1324R probably benign Het
Lgi3 A G 14: 70,771,958 (GRCm39) E215G possibly damaging Het
Mst1r A G 9: 107,790,348 (GRCm39) T654A possibly damaging Het
Mst1r A G 9: 107,785,068 (GRCm39) Y242C probably damaging Het
Myo16 A T 8: 10,620,132 (GRCm39) Q1561L possibly damaging Het
Obscn A C 11: 58,973,134 (GRCm39) M2222R probably damaging Het
Or10ak13 A T 4: 118,639,626 (GRCm39) V52D possibly damaging Het
Or13p10 A T 4: 118,523,379 (GRCm39) I222F probably benign Het
Or2ag1 A G 7: 106,313,837 (GRCm39) I17T probably benign Het
Or5ap2 T G 2: 85,680,432 (GRCm39) F212C probably damaging Het
Or8b50 A G 9: 38,518,719 (GRCm39) probably benign Het
Plch1 G A 3: 63,606,160 (GRCm39) P1239L possibly damaging Het
Ptprm A T 17: 67,260,118 (GRCm39) I499K probably damaging Het
Rabep2 G T 7: 126,039,566 (GRCm39) R331L possibly damaging Het
Ror2 C T 13: 53,264,764 (GRCm39) S764N probably damaging Het
Sema7a A G 9: 57,864,889 (GRCm39) T397A probably benign Het
Sftpc A C 14: 70,759,309 (GRCm39) M124R probably damaging Het
Slc25a38 A G 9: 119,949,878 (GRCm39) Y198C probably damaging Het
Sppl2a A T 2: 126,746,861 (GRCm39) M489K possibly damaging Het
Swt1 T A 1: 151,246,377 (GRCm39) K849N probably benign Het
Ttc3 T A 16: 94,219,457 (GRCm39) probably benign Het
Vmn2r63 A G 7: 42,553,432 (GRCm39) V608A probably benign Het
Vwf A G 6: 125,619,369 (GRCm39) Y1349C probably damaging Het
Zfp318 C T 17: 46,707,736 (GRCm39) R265* probably null Het
Other mutations in Ybx3
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL02135:Ybx3 APN 6 131,357,892 (GRCm39) missense probably damaging 1.00
PIT1430001:Ybx3 UTSW 6 131,356,422 (GRCm39) missense probably damaging 1.00
R2869:Ybx3 UTSW 6 131,347,376 (GRCm39) missense probably damaging 1.00
R2869:Ybx3 UTSW 6 131,347,376 (GRCm39) missense probably damaging 1.00
R2870:Ybx3 UTSW 6 131,347,376 (GRCm39) missense probably damaging 1.00
R2870:Ybx3 UTSW 6 131,347,376 (GRCm39) missense probably damaging 1.00
R2873:Ybx3 UTSW 6 131,347,376 (GRCm39) missense probably damaging 1.00
R4654:Ybx3 UTSW 6 131,347,290 (GRCm39) missense probably damaging 0.99
R5878:Ybx3 UTSW 6 131,344,726 (GRCm39) critical splice donor site probably null
R5881:Ybx3 UTSW 6 131,345,451 (GRCm39) missense possibly damaging 0.71
R7796:Ybx3 UTSW 6 131,345,479 (GRCm39) missense probably damaging 0.98
R7833:Ybx3 UTSW 6 131,344,826 (GRCm39) missense possibly damaging 0.83
R7986:Ybx3 UTSW 6 131,356,362 (GRCm39) nonsense probably null
R8003:Ybx3 UTSW 6 131,345,400 (GRCm39) nonsense probably null
R8043:Ybx3 UTSW 6 131,361,469 (GRCm39) missense probably benign 0.13
R9802:Ybx3 UTSW 6 131,345,426 (GRCm39) missense probably benign 0.01
X0024:Ybx3 UTSW 6 131,357,867 (GRCm39) missense possibly damaging 0.88
Posted On 2015-04-16